DreINT0046814 @ danRer10
Intron Retention
Gene
ENSDARG00000086647 | chrng
Description
cholinergic receptor, nicotinic, gamma [Source:ZFIN;Acc:ZDB-GENE-030131-3805]
Coordinates
chr2:45241426-45243568:+
Coord C1 exon
chr2:45241426-45241672
Coord A exon
chr2:45241673-45243434
Coord C2 exon
chr2:45243435-45243568
Length
1762 bp
Sequences
Splice sites
5' ss Seq
TACGTCAGT
5' ss Score
3.13
3' ss Seq
CTGTGTTATTCTGACCTCAGAGA
3' ss Score
6.89
Exon sequences
Seq C1 exon
GTGTTGTTGAACATCCTTCCTCGAGTGCTGAGGATGACGATGCAGCGCTGGACACCTGAGCAGGAGGAAGGGGATTTTAAGATGTTCGCTCTGGGCAATGGAACTCCGCTCCGCCGCAGGAGACGCAGCTCTTTAGGGTTAATAGCAAAGGCGGATGAATACATGTTCAGAACGGCACGATCCGAGCTCATGTTCAGCCGACTGAAGGAGAGGAAGGGGCTGCTGAAGAACACTCTGGAGAAAATAC
Seq A exon
GTCAGTAAATGATCACGAACAAACTACTTATACACTATCATTCAAATATAAGGGGTGGGCAACATGCTGAAAATGACCGGCACGATGGCTAAGTGGTTAGCACTGTCGCCTCACAGCAAGGAGGTTGCTAGTTCGAGTCCAGGCTGGGCCAGTTGGCACTTCTGTGTGAGTTTCCTCGTTGTGCTCTGGTTTTACTCCAAATCCAAAGACATGCGGTATAGGTGAATTGAATAAACTAAATTGTCCGTTGTGTGTGAATGAGTATGGATGGATGTTTCCCAATATGGGTTTTGGCTGGAAGGGCATCCGCTGGGTATAGCGGACAATAATTGGCGGTTCATTCTGCGTTGGCGACTTCTGAAATAGAGACTAAGCTGAAAGAAAATGAATAAATGAACGAACATGCTGAAAATTCAGAAGACTTGAATAAATTATCATTTCTTTAACACTGTAAAAAAATCCTTCAAGTTGTCCCAACACAAACCGATTAAGCTAACTTAATTGATTTAAAAAATTTAAGTGGATTGAACATGAAAGGAATAATTTGACCCCAAAAAACTCAAGAATTGTGACGATTCAGCTCATTTTGAATAAGTTGTTTGAACAAACACAAAAAATATATATATATTTTTGATACAGTACAGAATAGTTGGTGGTTCATTCCACTGTGGCAACCCGTAATAAATAAGGGACTAAGCCAAAGGAAAATGAATGTAGATTCTAAAACGTGACTAGTTGACTTTTTTTTTAAAAAGTGAGTAAAATCGGGACCTTAATTTAAATTAACTATGTGTGTAATTATTAAAATTATTCAGCTTGTTGTTTTAAGGGCAACAGGACTTACTTACTTTTTTATGTAACCAATCGCTTTTTACAGTGTTTTTTATCTAATTAATTGAGCATTATTAAATCAGTAATATATATTCACATTATTAAATCAGTATTATATATTCAACAACAATAAAAAATATTCTTGATATTCATTATCAAATATACTATAATATATCAATATATTTGTGATTTACGGGATCTTTCCTCCATCAACTTTTAATGTTAAAAAGGTGGAAAGGTGACTTTTATAGACATTTTAATAGTATGAAGAGATTTATTGTCTGGGTTGGGTTGTAAATATTGGAACAGAAACCTGGTAATACACTGCCAGTACATTTTTCTGTAAATAATGGACTTAACTGTCCATGTGTTTTTTCTTATATAACATATTGTCACAAGCTACTAAAATGTCCATAAAAGTCACTTTGTTCAACTGTAGAGTTGAATTTTCAACATTAAAAGTCGACAGAGCAGAGATCAACTTCCCATTATGCAATTCATAACCGTAAATAAACAGAAAAACATCCTTCACAAAATACAGAACCAAATAATGGATGATATTATTAAACAGTAATTAGTGTATTTTTTATATTAGTTAGTTCCTTCATGCTCGTTTATACTCTTTCATTTTTTTTTGTTTACATAAATGTATATACACTGTAAACAATTGAGTGACAAGAAGTTTTTTTTTTAACAATCAACTTAATATTTTTAGTTTAGTTTGATTAATGTGAGCTGAAATGACTAAAAAAGTTAAATTGATTTAGCTAAAAGAACATTTTGGCAGCAATATTTTTTTTACAGACAGATGAATGCAGATTTTAGATAATATTAATAAAACATATTATTAACCACTTTTTAATAAGGTTTTCTGTAGTGATGTTTTTGCCAAATGGCTTCTGGCATTAATCCTGTGTTATTCTGACCTCAG
Seq C2 exon
AGAATGGTCTGGGGGGAAACACGGCACAGGATCTGGAGTGCAGTTTAGCAGCGGCCTCCCCTGAAGTGCAGCAGTGTGTGTCCTCCTGCAAACACATCGCAGAAAGCACCAAGCATCAAAATGACTTCCAAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000086647:ENSDART00000123966:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.044
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(31.9=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(17.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATCCTTCCTCGAGTGCTGA
R:
TGGTGCTTTCTGCGATGTGTT
Band lengths:
348-2110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]